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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttctgtaatttgaggtatgtgccttttgggaattgaataaaatagagcttatttgaaggtttgaagtttgataaaataatggtttaaaattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAATTGCTTTGTTTGATGTTGACGGGACTCTTACAGCTCCCAGGAAG

Basic information

species Glycine max
transcript GLYMA09G39800.1
intron # 1
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|151397333|gb|EV267206.1|EV267206
EST:     AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAG                         GTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
genomic: AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAGgcaagttctc ... aattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
EST: gi|151394604|gb|EV264475.1|EV264475
EST:     AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAG                         GTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
genomic: AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAGgcaagttctc ... aattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
EST: gi|209714867|gb|BW682032.1|BW682032
EST:     AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAG                         GTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
genomic: AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAGgcaagttctc ... aattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
EST: gi|192301212|gb|FG988977.1|FG988977
EST:     AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAG                         GTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
genomic: AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAGgcaagttctc ... aattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
EST: gi|19453591|gb|BM955001.1|BM955001
EST:     AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAG                         GTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA
genomic: AGATCTGCTTCAAGCTCTGTCCCCTTCTTCCACTTCCACCCTCCTCTCAGgcaagttctc ... aattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagagcttatttgaaggtttgaagtttgataaaataatggtttaaaattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAATTGCTTTGTTTGATGTTGACGGGACTCTTACAGCTCCCAGGAAG
                       gtttgat  putative branch site (score: 5)
                 tttgaagtttgataaa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgttctgtaatttgaggtatgtgccttttgggaattgaataaaatagagcttatttgaaggtttgaagtttgataaaataatggtttaaaattttgcagGTTTTTGTGGATAAGAGTGAGCTATAATGGCTGCCAGGAGACCGGGTTTAATTGCTTTGTTTGATGTTGACGGGACTCTTACAGCTCCCAGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- -ttctgta
- - - - - - - - - tatgtgc
- - - - - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa